1 #ifndef UNIFRACWEIGHTEDCOMMAND_H
2 #define UNIFRACWEIGHTEDCOMMAND_H
5 * unifracweightedcommand.h
8 * Created by Sarah Westcott on 2/9/09.
9 * Copyright 2009 Schloss Lab UMASS Amherst. All rights reserved.
13 #include "command.hpp"
21 class UnifracWeightedCommand : public Command {
24 UnifracWeightedCommand();
25 ~UnifracWeightedCommand() { delete weighted; }
29 GlobalData* globaldata;
30 vector<Tree*> T; //user trees
31 vector<double> utreeScores; //user tree unweighted scores
32 vector<double> WScoreSig; //tree weighted score signifigance when compared to random trees - percentage of random trees with that score or lower.
33 vector<string> groupComb; // AB. AC, BC...
34 Tree* randT; //random tree
37 string weightedFile, weightedFileout, sumFile;
38 int iters, numGroups, numComp, counter;
39 EstOutput userData; //weighted score info for user tree
40 EstOutput randomData; //weighted score info for random trees
41 vector< vector<double> > rScores; //vector<weighted scores for random trees.> each group comb has an entry
42 vector< vector<double> > uScores; //vector<weighted scores for user trees.> each group comb has an entry
43 vector< map<float, float> > rScoreFreq; //map <weighted score, number of random trees with that score.> -vector entry for each combination.
44 vector< map<float, float> > rCumul; //map <weighted score, cumulative percentage of number of random trees with that score or higher.> -vector entry for each c
45 map<float, float> validScores; //map contains scores from random
46 map<float, float>::iterator it2;
47 map<float, float>::iterator it;
52 void printWSummaryFile();
53 void printWeightedFile();
54 //void removeValidScoresDuplicates();
55 int findIndex(float, int);
57 void calculateFreqsCumuls();
58 void initFile(string);
59 void output(vector<double>);